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Job DescriptionP46923
Confidence100.00%DateThu Jan 5 12:04:40 GMT 2012
Rank6Aligned Residues720
% Identity22%Templatec1kqgA_
PDB info PDB header:oxidoreductaseChain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit; PDBTitle: formate dehydrogenase n from e. coli
Resolution2.80 Å

  Insertion relative to template
  Deletion relative to template
  Catalytic residue from the CSA
 
Detailed help on interpreting your alignment


   2930.........40.........50... ......60........ .70.........80.........90.......
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Query Sequence  AWAEEKGGKILTAGRWGAMNVEVKD. . . . . . . GKIVSSTGALAKTIP. . . . NSLQSTAADQVHTTARIQHPMVRKSYLDN
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Template Sequence  LRAKEIRNTCTYCSVGCGLLMYSLGDGAKNAREAIYHIEGDPDHPVSRGALCPKGAGLLDYVNSENRLRYPEYRAP. . . .
Template Known Secondary structure  TTS
SSBTT

S
S
TTS


TT
TTTTT


TTT
TTB

S

T....
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   41........50.........60.........70.........80.........90.........100.........110......
 
   98.100.........110.........120.........130....... ..140.........150.........160.....
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Query Sequence  PLQPAKGRGEDTYVQVSWEQALKLIHEQHDRIRKANGPSA. . . . . . . . . . . . IFAGSYGWRSSGVLHKAQTLLQRYMNLA
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Template Sequence  . . . . . . . . GSDKWQRISWEEAFSRIAKLMKADRDANFIEKNEQGVTVNRWLSTGMLCASGAS. . . . NETGMLTQKFARSL
Template Known Secondary structure  ........T
SS




TTS
B
S
TTS
....T
Template Predicted Secondary structure  ........

























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   117..120.........130.........140.........150.........160.........170 .........180....
 
   166...170.........180.........190.........200.........210.........220.........230.........240.....
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Query Sequence  GGYSGHSGDYSTGAAQVIMPHVVGSVEVYEQQTSWPLILENSQVVVLWGMNPLNTLKIAWSSTDEQGLEYFHQLKKSGKP
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Template Conservation 

 
                   
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Template Sequence  GMLAVDNQARVHGPTVASLAPTFG. . . . RGAMTNHWVDIKNANVVMVMGGNAAEAHPVGF. . . . . . . RWAMEAKNNNDAT
Template Known Secondary structure  TB

GGG

S....

S
SS
TGGGGG
SS

S.......S

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   185....190.........200........ .210.........220.........230.........240 .........250...
 
   246...250.........260.........270.........280.........290.........300..
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Query Sequence  VIAIDPIRSETIEFFDDNATWIAPNMGTDVALMLGIAHTLMTQGKHDKVFLEKYTTG. . . . . . . . . . . . . . . . . . . . . . .
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Template Sequence  LIVVDPRFTRTASVAD. . . IYAPIRSGTDITFLSGVLRYLIENNKINAEYVKHYTNASLLVRDDFAFEDGLFSGYDAEKR
Template Known Secondary structure 
SS

T
S...


TT
TT
S
BSTTBBB
TT

TTTTTTTT
Template Predicted Secondary structure 






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   255....260.........270 .........280.........290.........300.........310.........320.........330.
 
   303......310.........320.........330.........340.... ....
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . YPQFEEYLTGKSDNTPKSAVWAAEITGVPEAQIVKLAELMAA. . . . . NRTM
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Template Sequence  QYDKSSWNYQLDENGYAKRDETLTHPRCVWNLLKEHV. . . . . . SRYTPDVVENICGTPKADFLKVCEVLASTSAPDRTTT
Template Known Secondary structure 

TTSSB
B
TTSSB
B
TTS
STTB......TT




GGGSTT

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   332.......340.........350.........360........ .370.........380.........390.........400.....
 
   349350.........360.........370.........380.........390.........400.........410.........420
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Query Sequence  LMAGWGIQRQQYGEQKHWMLVTLAAMLGQIGTPGGGFGFSYHYSNGGNPTRVGGVLPEMSAAIAGHASEAAD. . . . . . . .
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Template Sequence  FLYALGWTQHTVGAQNIRTMAMIQLLLGNMGMAGGGVNALRGHSNIQGLTDLGLLSTSLPGYLTLPSEKQVDLQSYLEAN
Template Known Secondary structure  SSSTTTT
TTSTT
S


BTTTT
STTGGG

BTT

S
Template Predicted Secondary structure 























































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   406...410.........420.........430.........440.........450.........460.........470.........480.....
 
   421........430.........440.........450.........460.........470.
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . DGGMTAIPVARIVDALENPGGKYQHNGKEQTYPNIKMIWWAGGGNFTHHQD
Query Conservation  .............................       
                          

 
   
 

    
 
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Template Conservation                                                                 

       

  
   
Template Sequence  TPKATLADQVNYWSNYPKFFVSLMKSFYGDAAQKENNWGYDWLPKWDQTYDVIKYFNMMDEGKVTGYFCQGFNPVASFPD
Template Known Secondary structure  S


SSSS


GGGGGGG

GGGGGGGGGS

BSS


TT


S

SS
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   486...490.........500.........510.........520.........530.........540.........550.........560.....
 
   472.......480.........490.........500 .........510.........520.........530....
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Query Sequence  TNRLIKAWQKPEMIVVSECYWTAAAKHAD. . . . . . . . . . . . . . . . . IVLPITTSFERNDLTMTGDYSNQHIVPMKQAVAP
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Template Sequence  KNKVVSCLSKLKYMVVIDPLVTETSTFWQNHGESNDVDPASIQTEVFRLPSTCFAEEDGSIANSGRW. . . LQWHWKGQDA
Template Known Secondary structure  TT
SSB

TGGGTTS

GGGG


GGG


B

GGGS

TTS...


S

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   566...570.........580.........590.........600.........610.........620.........630.. .......640..
 
   535....540.........550... ......560.........570... ......580.........590
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Query Sequence  QFEARNDFDVFADLAELLK. . . . . . . . . . . . . . . . PGGKEIYTEGKDEMAWLKFF. . . . . . . . YDAAQKGARAQRVTMPM
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Template Conservation   

   
 

   

  

                                                             
Template Sequence  PGEARNDGEILAGIYHHLRELYQSEGGKGVEPLMKMSWNYKQPHEPQSDEVAKENNGYALEDLYDANGVLIAKKGQLLSS
Template Known Secondary structure  STT
B


SSS



SSTTS


SS

TTS

TT
B
S
Template Predicted Secondary structure 










































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   643......650.........660.........670.........680.........690.........700.........710.........720..
 
   591........600.........610.........
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Query Sequence  FNAFWQQNKLIEMRHSEKNEQYVRYGDFR. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation                               ...................................................
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Template Conservation         
                                                                        
Template Sequence  FAHLRDDGTTASSCWIYTGSWTEQGNQMANRDNSDPSGLGNTLGWAWAWPLNRRVLYNRASADINGKPWDPKRMLIQWNG
Template Known Secondary structure  GGG

SSSS
S
GGGTTSTTGGG
B



TTSSS

TTBSTTTT
SSTTGGGGB
TTS
BSSGGG


S
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   723......730.........740.........750.........760.........770.........780.........790.........800..
 
   620.........630.........640.... .....650.........660....
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Query Sequence  . . . . . . . . ADPVKNALGTPSGKIEIYSKTLEKF. . . GYKDCPAHPTWLAPDEWKGT. . . . . . . . . . . . . . . . . . . . . . . .
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Template Conservation                   

 

                      
   

   
                          
Template Sequence  SKWTGNDIPDFGNAAPGTPTGPFIMQPEGMGRLFAINKMAEGPFPEHYEPIETPLGTNPLHPNVVSNPVVRLYEQDALRM
Template Known Secondary structure  SSSS

SS
S

TTSS

S
TTSTTSSB
SS
TT
STT
SS





SS
TTSS
TT
TT

S
TT



TT
Template Predicted Secondary structure 









































































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   803......810.........820.........830.........840.........850.........860.........870.........880..
 
   665....670.........680.........690.........700.........710.........720.........730.........740.
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Query Sequence  . . ADEKQLQLLTAHPAHRLHSQLNYAELRKKYAIADREPITIHTEDAARFGIANGDLVRVWNKRGQILTGAVVTDGIKK.
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Template Sequence  GKKEQFPYVGTTYRLTEHFHTWTKHALLNAI. . AQPEQFVEISETLAAAKGINNGDRVTVSSKRGFIRAVAVVTRRLKPL
Template Known Secondary structure 

TTT



TT

TTTGGGS..S
S

T

TT
TT
TTS

Template Predicted Secondary structure 

















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   883......890.........900.........910... ......920.........930.........940.........950.........960
 
   742.......750.........760.........770.........780.........790..
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Query Sequence  . . . . . . . GVVCVHEGAWPDLENGLCKNGSANVLTADIPSSQLANACAGNSALVYIEKY
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Template Conservation   
       
  
   
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Template Sequence  NVNGQQVETVGIPIHWGFE. . GVARKGYIANTLTPNV. GDANSQTPEYKAFLVNIEKA
Template Known Secondary structure  TT




SS..SSS




GGGS

S
.B
TTT

B
TTS
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   961........970......... 980.........990..... ....1000.........1010.....
 
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Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
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Lawrence Kelley, Benjamin Jefferys 
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